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. 2020 Aug 26;27:100518. doi: 10.1016/j.eclinm.2020.100518

Table A2.

Complete microbiological test results for each patient.

Patient COVID-19 PCR Respiratory Viral PCR mNGS Respiratory Culture Pathogen Blood Culture Pathogen Multiplex Viral PCR Ordered RSV/Flu PCR Ordered
1 negative n/a yes yes
2 negative negative yes yes
3 negative n/a yes yes
4 negative n/a yes no
5 negative negative no no
6 negative negative Candida glabrata no no
7 negative n/a yes no
8 negative n/a yes no
9 negative n/a no no
10 negative n/a yes no
11 negative n/a no no
12 negative Human Metapneumovirus n/a yes yes
13 negative Rhinovirus + RSV n/a yes yes
14 negative Rhinovirus Rhinovirus A yes no
15 negative negative yes yes
16 negative n/a yes yes
17 negative n/a no no
18 negative n/a no no
19 negative n/a yes no
20 negative n/a yes no
21 SARS-CoV-2 n/a yes yes
22 negative n/a yes no
23 negative n/a no no
24 negative n/a no no
25 SARS-CoV-2 SARS-CoV-2 yes no
26 negative n/a yes yes
27 SARS-CoV-2 SARS-CoV-2 no no
28 negative n/a no no
29 SARS-CoV-2 invalid yes yes
30 negative Human metapneumovirus n/a yes no
31 negative n/a no no
32 negative negative yes yes
33 SARS-CoV-2 SARS-CoV-2 no no
34 SARS-CoV-2 SARS-CoV-2 no no
35 negative n/a yes no
36 negative n/a Staphylococcus aureus no no
37 negative negative yes yes
38 negative n/a no no
39 negative negative yes yes
40 negative negative no no
41 negative n/a yes no
42 negative n/a yes no
43 negative n/a Group A Streptococcus yes no
44 negative n/a yes no
45 negative n/a yes yes
46 negative n/a no no
47 negative n/a yes no
48 negative Rhinovirus Rhinovirus C yes no
49 negative negative yes yes
50 negative n/a Group G Streptococcus yes no
51 negative Human CoV 229E yes yes
52 negative n/a no no
53 negative n/a yes no
54 negative negative yes yes
55 negative RSV RSV yes yes
56 negative n/a no no
57 negative n/a yes no
58 negative n/a yes yes
59 negative n/a Klebsiella pneumoniae yes yes
60 negative n/a yes no
61 negative negative yes yes
62 negative n/a no no
63 negative n/a no no
64 negative negative no no
65 negative n/a no no
66 negative n/a no no
67 SARS-CoV-2 n/a no no
68 negative n/a no no
69 negative n/a yes no
70 SARS-CoV-2 SARS-CoV-2 yes no
71 negative n/a no no
72 negative n/a yes yes
73 negative negative no no
74 negative n/a no no
75 negative n/a yes no
76 negative n/a yes no
77 negative negative yes yes
78 negative negative yes yes
79 negative Influenza A n/a no yes
80 negative n/a no no
81 negative n/a yes no
82 negative invalid no no
83 negative n/a no no
84 negative n/a yes yes
85 negative negative yes yes
86 SARS-CoV-2 SARS-CoV-2 yes no
87 SARS-CoV-2 SARS-CoV-2 yes no
88 negative negative no no
89 negative negative H. parainfluenzae no no
90 negative n/a no no
91 negative n/a no no
92 negative n/a yes yes
93 negative n/a no no
94 SARS-CoV-2 n/a yes yes
95 SARS-CoV-2 n/a yes yes
96 SARS-CoV-2 n/a no no
97 negative negative yes no
98 negative negative no no
99 negative Human metapneumovirus n/a yes yes
100 negative n/a no no
101 negative Human metapneumovirus Human Metapneumovirus yes yes
102 negative n/a yes no
103 negative n/a yes no
104 negative n/a no no
105 negative n/a yes no
106 SARS-CoV-2 n/a yes no
107 SARS-CoV-2 n/a no yes
108 SARS-CoV-2 invalid yes yes
109 negative n/a yes yes
110 SARS-CoV-2 SARS-CoV-2 Stenotrophomonas maltophilia Enterococcus faecium yes yes
111 negative n/a yes no
112 negative RSV RSV yes yes
113 negative negative yes yes
114 negative n/a no no
115 negative negative Staphylococcus aureus yes yes
116 negative negative no yes
117 negative Human CoV NL63 no no
118 negative n/a Group A Streptococcus yes no
119 negative n/a yes yes
120 negative n/a yes yes
121 negative Rhinovirus Rhinovirus A yes no
122 SARS-CoV-2 n/a no no
123 negative negative yes yes
124 negative negative no yes
125 negative negative yes yes
126 negative n/a yes no
127 negative n/a no no
128 negative n/a yes yes
129 SARS-CoV-2 n/a yes no
130 negative n/a yes no
131 SARS-CoV-2 SARS-CoV-2 no no
132 negative negative Enterobacter cloacae complex yes yes
133 negative n/a no no
134 negative n/a no no
135 negative Influenza A virus no no
136 negative n/a no no
137 negative n/a Group C Streptococcus yes yes
138 negative n/a yes yes
139 negative n/a no no
140 negative negative no no
141 negative Influenza B n/a no yes
142 negative n/a no no
143 negative n/a no no
144 negative n/a no yes
145 negative negative Enterococcus faecium yes no
146 negative n/a yes no
147 negative n/a yes no
148 negative invalid yes yes
149 negative n/a no yes
150 negative n/a yes no
151 negative n/a no no
152 negative negative no yes
153 negative negative no no
154 negative n/a yes yes
155 negative Human metapneumovirus Human Metapneumovirus yes yes
156 negative n/a yes yes
157 negative negative no no
158 negative invalid no yes
159 negative n/a yes yes
160 negative Parainfluenza virus 4 no no
161 negative negative no no
162 negative n/a H. parainfluenzae no no
163 negative n/a no no
164 negative n/a no no
165 negative n/a yes yes
166 negative n/a yes no
167 negative n/a no no
168 negative Influenza A Influenza A virus yes yes
169 negative n/a yes yes
170 negative negative yes yes
171 negative n/a Enterococcus faecalis no no
172 negative n/a yes yes
173 SARS-CoV-2 n/a no no
174 negative n/a yes yes
175 SARS-CoV-2 n/a no no
176 negative Rhinovirus Rhinovirus A H. parainfluenzae yes no
177 negative n/a no no
178 SARS-CoV-2 SARS-CoV-2 no no
179 negative n/a yes no
180 negative n/a no no
181 negative n/a no no
182 negative negative no no
183 negative Human metapneumovirus invalid yes no
184 negative n/a no no
185 negative negative yes no
186 negative n/a yes yes
187 negative n/a no no
188 negative negative yes yes
189 negative n/a yes no
190 negative Human Metapneumovirus no no
191 negative n/a no no
192 negative n/a no no
193 negative n/a no no
194 negative negative yes no
195 negative n/a no no
196 negative invalid yes no
197 negative n/a yes no
198 negative n/a no no
199 negative n/a no no
200 negative n/a no no
201 SARS-CoV-2 n/a yes no
202 negative n/a yes no
203 negative n/a yes no
204 negative n/a yes yes
205 negative negative yes yes
206 negative negative no no
207 negative n/a no no
208 negative n/a no no
209 negative negative no no
210 negative n/a no no
211 negative Human CoV 229E no no
212 negative n/a no no
213 negative n/a no no
214 negative n/a yes yes
215 negative negative yes yes
216 SARS-CoV-2 SARS-CoV-2 no no
217 negative n/a no no
218 negative invalid yes no
219 negative n/a yes no
220 negative n/a no no
221 negative negative yes yes
222 negative n/a no no
223 negative negative no yes
224 negative n/a no no
225 negative invalid yes no
226 negative negative no no
227 negative n/a no yes
228 negative n/a no no
229 negative negative yes yes
230 negative Rhinovirus C no no
231 negative n/a no no
232 negative negative yes yes
233 negative n/a yes no
234 negative n/a no no
235 negative n/a yes no
236 negative n/a no no
237 negative Influenza A virus no no
238 negative Influenza A virus no no
239 negative n/a yes yes
240 negative negative no no
241 negative n/a yes yes
242 negative negative yes yes
243 negative n/a no no
244 negative n/a yes no
245 negative Rhinovirus Rhinovirus A yes no
246 negative n/a yes no
247 negative n/a no no
248 negative n/a yes yes
249 negative n/a no no
250 negative n/a no no
251 negative n/a no no
252 negative n/a yes no
253 negative Rhinovirus C no no
254 negative negative yes no
255 negative n/a E. coli yes no
256 negative n/a yes no
257 negative negative yes yes
258 negative n/a yes no
259 negative n/a no no
260 negative Human Bocavirus yes yes
261 SARS-CoV-2 n/a yes no
262 negative n/a yes no
263 SARS-CoV-2 SARS-CoV-2 no no
264 SARS-CoV-2 n/a yes no
265 negative n/a yes no
266 negative n/a no no
267 negative n/a no no
268 negative Human metapneumovirus n/a yes yes
269 negative n/a yes no
270 negative n/a yes yes
271 negative negative Pseudomonas aeruginosa yes yes
272 negative negative yes yes
273 negative n/a yes yes
274 negative Rhinovirus A yes yes
275 negative negative yes yes
276 SARS-CoV-2 n/a no no
277 negative negative yes yes
278 negative n/a yes yes
279 negative Influenza B n/a yes yes
280 negative n/a no no
281 negative n/a no no
282 negative negative no no
283 negative negative no no
284 negative n/a no no
285 negative n/a no no
286 negative negative no no
287 negative negative yes yes
288 negative negative no no
289 negative invalid no no
290 SARS-CoV-2 n/a yes yes
291 negative n/a yes no
292 negative n/a Pseudomonas aeruginosa yes no
293 negative n/a yes no
294 negative n/a no no
295 SARS-CoV-2 negative no no
296 negative n/a no no
297 negative n/a no no
298 negative n/a yes no
299 negative n/a no no
300 negative n/a no no
301 negative negative no yes
302 negative n/a yes no
303 negative n/a yes yes
304 negative n/a yes no
305 negative n/a yes yes
306 negative n/a no no
307 negative n/a yes no
308 negative n/a no no
309 SARS-CoV-2 SARS-CoV-2 yes no
310 negative n/a yes yes
311 negative n/a yes no
312 negative n/a yes no
313 negative n/a yes no
314 SARS-CoV-2 n/a yes yes
315 negative n/a no no
316 negative n/a no no

Legend: Respiratory culture: sputum, endotracheal aspirate or bronchoalveolar lavage; negative: not detected; n/a = not applicable because RNA from patient sample unavailable for testing; invalid = sample unable to be analyzed by mNGS due to insufficient (<25 pg) RNA.